depristo
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3a341b2f06
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Fixes for VariantEval for genotyping mode
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1659 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-18 21:01:43 +00:00 |
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depristo
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ec0f6f23c7
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LocusIterationByState is now the system deafult. Fixed Aaron's build problem
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1552 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-09 01:28:05 +00:00 |
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depristo
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caf5aef0f8
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Much improved python analysis routines, as well as easier / more correct merging utility. Better R scripts, which now close recalibration data by the confidence of the quality score itself
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1081 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-24 01:12:35 +00:00 |
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depristo
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9e26550b0d
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Apprach v2. Added python analysis script, so java no longer must be used to analyses quality score data. About to refactor out lots of unneeded code
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1063 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-20 16:00:23 +00:00 |
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depristo
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7fa84ea157
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10x speedup of recalibration walker
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@954 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-09 15:39:40 +00:00 |
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depristo
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ae2eddec2d
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Improving, yet again, the merging of bam files
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@874 348d0f76-0448-11de-a6fe-93d51630548a
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2009-06-02 13:31:12 +00:00 |
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depristo
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6adef28b97
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Now supports automatic merging by population
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@864 348d0f76-0448-11de-a6fe-93d51630548a
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2009-05-31 15:28:44 +00:00 |
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depristo
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04e51c8d1d
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Better version of MergeBAMBatch -- more options for creating the file
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@787 348d0f76-0448-11de-a6fe-93d51630548a
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2009-05-21 22:26:19 +00:00 |
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depristo
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3b1f84e15b
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Slightly improved interface to merging utility for multiple bam files
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@757 348d0f76-0448-11de-a6fe-93d51630548a
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2009-05-20 12:54:41 +00:00 |
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depristo
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e9f85ef920
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Better merge support
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@748 348d0f76-0448-11de-a6fe-93d51630548a
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2009-05-18 21:18:51 +00:00 |
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depristo
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3739682bef
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Actually has working version of the python script to merge multiple bam files
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@530 348d0f76-0448-11de-a6fe-93d51630548a
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2009-04-24 19:15:55 +00:00 |
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depristo
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b8a6f6e830
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Support for indexBAM command
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@496 348d0f76-0448-11de-a6fe-93d51630548a
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2009-04-22 19:39:07 +00:00 |
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depristo
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49b2622e3d
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Helper utility for merging BAM files
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@345 348d0f76-0448-11de-a6fe-93d51630548a
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2009-04-09 20:10:41 +00:00 |